Coarse-grain modelling of DMPC and DOPC lipid bilayers

被引:73
|
作者
Orsi, Mario [1 ]
Michel, Julien [1 ]
Essex, Jonathan W. [1 ]
机构
[1] Univ Southampton, Sch Chem, Southampton SO17 1BJ, Hants, England
基金
英国生物技术与生命科学研究理事会;
关键词
SOFT STICKY DIPOLE; LATERAL PRESSURE PROFILES; MOLECULAR-DYNAMICS SIMULATIONS; X-RAY-SCATTERING; WATER PERMEABILITY; PHOSPHOLIPID-MEMBRANES; DIOLEOYLPHOSPHATIDYLCHOLINE BILAYERS; ELECTROSTATIC PROPERTIES; TEMPERATURE-DEPENDENCE; SPONTANEOUS CURVATURE;
D O I
10.1088/0953-8984/22/15/155106
中图分类号
O469 [凝聚态物理学];
学科分类号
070205 ;
摘要
Our recently developed coarse-grain model for dimyristoylphosphatidylcholine (DMPC) has been improved and extended to dioleylphosphatidylcholine (DOPC), a more typical constituent of real biological membranes. Single-component DMPC and DOPC bilayers have been simulated using microsecond-long molecular dynamics. We investigated properties that are difficult or impossible to access experimentally, such as the pressure distribution, the spontaneous curvature and the diffusion pattern of individual lipid molecules. Moreover, we studied the dipole potential, a basic physical feature of paramount biological importance that cannot be currently modelled by other coarse-grain approaches. In fact, a complete representation of the system electrostatics and a realistic description of the water component make our method unique amongst the existing coarse-grain membrane models. The spontaneous permeation of water, a phenomenon out of reach of standard atomistic models, was also observed and quantified; this was possible thanks to the efficiency of our model, which is about two orders of magnitude less computationally expensive than atomic-level counterparts. Results are generally in good agreement with the literature data. Further model extensions and future applications are proposed.
引用
收藏
页数:15
相关论文
共 50 条
  • [41] EXTRAORDINARILY HIGH PLASTICITY OF COARSE-GRAIN MAGNALIUM
    NIKIFOROV, AO
    PORTNOY, VK
    NOVIKOV, II
    LEVCHENKO, VS
    GRINBERG, VY
    FIZIKA METALLOV I METALLOVEDENIE, 1989, 67 (01): : 185 - 191
  • [42] Scheduling coarse-grain operations for VLIW processors
    Busá, NG
    van der Werf, A
    Bekooij, M
    13TH INTERNATIONAL SYMPOSIUM ON SYSTEM SYNTHESIS, PROCEEDINGS, 2000, : 47 - 53
  • [43] Interviewing Witnesses: Eliciting Coarse-Grain Information
    Brewer, Neil
    Vagadia, Ambika Nagesh
    Hope, Lorraine
    Gabbert, Fiona
    LAW AND HUMAN BEHAVIOR, 2018, 42 (05) : 458 - 471
  • [44] Coarse-grain pipelining on multiple FPGA architectures
    Ziegler, H
    So, B
    Hall, M
    Diniz, PC
    10TH ANNUAL IEEE SYMPOSIUM ON FIELD-PROGRAMMABLE CUSTOM COMPUTING MACHINES, PROCEEDINGS, 2002, : 77 - 86
  • [45] COARSE-GRAIN SIMULATION OF LUBRICANT POLYMER SOLUTIONS
    Washizu, Hitoshi
    Yoshida, Hiroaki
    Usui, Soma
    Kawate, Taiki
    PROCEEDINGS OF THE ASME/JSME JOINT INTERNATIONAL CONFERENCE ON INFORMATION STORAGE AND PROCESSING SYSTEMS AND MICROMECHATRONICS FOR INFORMATION AND PRECISION EQUIPMENT, 2018, 2018,
  • [46] Transport phenomena in coarse-grain CdTe polycrystals
    S. A. Kolosov
    Yu. V. Klevkov
    A. F. Plotnikov
    Semiconductors, 2004, 38 : 293 - 297
  • [47] Coupling resolved and coarse-grain DEM models
    Queteschiner, Daniel
    Lichtenegger, Thomas
    Schneiderbauer, Simon
    Pirker, Stefan
    PARTICULATE SCIENCE AND TECHNOLOGY, 2018, 36 (04) : 517 - 522
  • [49] Protein Coarse-Grain Potentials for Folding Simulations
    Betancourt, Marcos R.
    BIOPHYSICAL JOURNAL, 2009, 96 (03) : 591A - 591A
  • [50] Improving the treatment of coarse-grain electrostatics: CVCEL
    Ceres, N.
    Lavery, R.
    JOURNAL OF CHEMICAL PHYSICS, 2015, 143 (24):